Examples with ByteProcessor ij.process.ByteProcessor used on opensource projects

Example 91 with ByteProcessor

use of ij.process.ByteProcessor in project GDSC-SMLM by aherbert.

the class PulseActivationAnalysis method drawLoop.

private void drawLoop(ImagePlus imp, Roi roi, int number) {
    if (!roi.isArea()) {
        return;
    }
    // Map the ROI to a crop of the results set
    final Rectangle roiBounds = roi.getBounds();
    final Rectangle resultsBounds = results.getBounds(true);
    // @formatter:off
    final Rectangle2D.Double r = new Rectangle2D.Double(resultsBounds.width * (double) roiBounds.x / imp.getWidth(), resultsBounds.height * (double) roiBounds.y / imp.getHeight(), // Since we output pixels map the width/height to the nearest pixel
    Math.ceil(resultsBounds.width * (double) roiBounds.width / imp.getWidth()), Math.ceil(resultsBounds.height * (double) roiBounds.height / imp.getHeight()));
    // @formatter:on
    final double x = r.getX();
    final double y = r.getY();
    final int magnification = getMagnification();
    // For each result set crop out the localisation and construct an overlay
    final Overlay o = new Overlay();
    for (int i = 0; i < output.length; i++) {
        final Color color = Settings.colors[i];
        // The first result is the memory results
        final MemoryPeakResults localResults = (MemoryPeakResults) output[i].getOutput(0);
        localResults.forEach(DistanceUnit.PIXEL, (XyrResultProcedure) (xx, yy, result) -> {
            if (r.contains(xx, yy)) {
                add(o, (xx - x) * magnification, (yy - y) * magnification, color);
            }
        });
    }
    // This results in a change of shape depending on where the roi is positioned
    int width = (int) r.getWidth();
    int height = (int) r.getHeight();
    width *= magnification;
    height *= magnification;
    final ImageProcessor ip = new ByteProcessor(width, height);
    final String loopTitle = imp.getTitle() + " Loop " + number;
    imp = WindowManager.getImage(loopTitle);
    if (imp == null) {
        imp = new ImagePlus(loopTitle, ip);
        imp.show();
    } else {
        imp.setProcessor(ip);
        imp.getWindow().toFront();
    }
    imp.setOverlay(o);
}

Example 92 with ByteProcessor

use of ij.process.ByteProcessor in project GDSC-SMLM by aherbert.

the class ImageConverterTest method createData.

private static Object createData(RandomSeed seed) {
    final UniformRandomProvider r = RngUtils.create(seed.getSeed());
    final ByteProcessor bp = new ByteProcessor(w, h);
    final ImageConverterTestData data = new ImageConverterTestData();
    data.bdata = (byte[]) bp.getPixels();
    data.sdata = new short[data.bdata.length];
    data.fdata = new float[data.bdata.length];
    for (int i = 0; i < bp.getPixelCount(); i++) {
        final int value = r.nextInt(256);
        bp.set(i, value);
        data.fdata[i] = data.sdata[i] = (short) value;
    }
    return data;
}

Example 93 with ByteProcessor

use of ij.process.ByteProcessor in project imagingbook-common by imagingbook.

the class KMeansClusteringQuantizerApache method main.

// ----------------------------------------------------------------------
public static void main(String[] args) {
    // String path = "D:/svn-book/Book/img/ch-color-images/alps-01s.png";
    // String path = "D:/svn-book/Book/img/ch-color-images/desaturation-hsv/balls.jpg";
    String path = "C:/_SVN/svn-book/Book/img/ch-color-images/desaturation-hsv/balls.jpg";
    // String path = "D:/svn-book/Book/img/ch-color-images/single-color.png";
    // String path = "D:/svn-book/Book/img/ch-color-images/two-colors.png";
    // String path = "D:/svn-book/Book/img/ch-color-images/random-colors.png";
    // String path = "D:/svn-book/Book/img/ch-color-images/ramp-fire.png";
    int K = 16;
    System.out.println("image = " + path);
    System.out.println("K = " + K);
    ImagePlus im = IJ.openImage(path);
    if (im == null) {
        System.out.println("could not open: " + path);
        return;
    }
    ImageProcessor ip = im.getProcessor();
    ColorProcessor cp = ip.convertToColorProcessor();
    Parameters params = new Parameters();
    params.maxColors = K;
    ColorQuantizer quantizer = new KMeansClusteringQuantizerApache(cp, params);
    quantizer.listColorMap();
    System.out.println("quantizing image");
    ByteProcessor qi = quantizer.quantize(cp);
    System.out.println("showing image");
    (new ImagePlus("quantizez", qi)).show();
}

Example 94 with ByteProcessor

use of ij.process.ByteProcessor in project imagingbook-common by imagingbook.

the class CannyEdgeDetector method detectAndTraceEdges.

private void detectAndTraceEdges() {
    if (Enms == null) {
        nonMaxSuppression();
    }
    Ebin = new ByteProcessor(M, N);
    int color = 255;
    edgeTraces = new ArrayList<>();
    for (int v = 0; v < N; v++) {
        for (int u = 0; u < M; u++) {
            if (Enms.getf(u, v) >= params.hiThr && Ebin.get(u, v) == 0) {
                // unmarked edge point
                EdgeTrace trace = traceAndThreshold(u, v, (float) params.loThr, color);
                edgeTraces.add(trace);
            }
        }
    }
}

Example 95 with ByteProcessor

use of ij.process.ByteProcessor in project imagingbook-common by imagingbook.

the class ColorQuantizer method quantize.

// ---------------------------------------------------------------
/**
 * Performs color quantization on the given full-color RGB image
 * and creates an indexed color image.
 *
 * @param cp The original full-color RGB image.
 * @return The quantized (indexed color) image.
 */
public default ByteProcessor quantize(ColorProcessor cp) {
    float[][] colormap = this.getColorMap();
    if (colormap.length > 256)
        throw new RuntimeException("cannot index to more than 256 colors");
    int w = cp.getWidth();
    int h = cp.getHeight();
    int[] rgbPixels = (int[]) cp.getPixels();
    byte[] idxPixels = new byte[rgbPixels.length];
    for (int i = 0; i < rgbPixels.length; i++) {
        idxPixels[i] = (byte) findColorIndex(rgbPixels[i], colormap);
    }
    IndexColorModel idxCm = makeIndexColorModel(colormap);
    return new ByteProcessor(w, h, idxPixels, idxCm);
}